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        MultiQC: Summarize analysis results for multiple tools and samples in a single report
        Philip Ewels, Måns Magnusson, Sverker Lundin and Max Käller
        Bioinformatics (2016)
        doi: 10.1093/bioinformatics/btw354
        PMID: 27312411

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        About MultiQC

        This report was generated using MultiQC, version 1.14

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        MultiQC is published in Bioinformatics:

        MultiQC: Summarize analysis results for multiple tools and samples in a single report
        Philip Ewels, Måns Magnusson, Sverker Lundin and Max Käller
        Bioinformatics (2016)
        doi: 10.1093/bioinformatics/btw354
        PMID: 27312411

        A modular tool to aggregate results from bioinformatics analyses across many samples into a single report.

        Report generated on 2023-04-18, 03:37 CEST based on data in:

        General Statistics

        Showing 494/494 rows and 3/6 columns.
        Sample Name% Dups% GCM Seqs
        DRR127488_qc_1
        47.3%
        46%
        39.5
        DRR127488_qc_2
        47.0%
        46%
        39.5
        DRR127524_qc_1
        50.1%
        46%
        37.4
        DRR127524_qc_2
        49.7%
        46%
        37.4
        DRR127532_qc_1
        36.0%
        45%
        16.3
        DRR127532_qc_2
        35.0%
        45%
        16.3
        DRR127535_qc_1
        35.6%
        46%
        13.4
        DRR127535_qc_2
        35.4%
        46%
        13.4
        DRR127537_qc_1
        35.8%
        48%
        19.9
        DRR127537_qc_2
        35.6%
        48%
        19.9
        DRR127546_qc_1
        50.9%
        45%
        48.1
        DRR127546_qc_2
        50.5%
        45%
        48.1
        DRR127552_qc_1
        34.3%
        44%
        13.4
        DRR127552_qc_2
        34.2%
        44%
        13.4
        DRR127583_qc_1
        31.1%
        46%
        22.6
        DRR127583_qc_2
        30.6%
        46%
        22.6
        DRR127588_qc_1
        85.6%
        44%
        18.5
        DRR127588_qc_2
        84.6%
        44%
        18.5
        DRR127596_qc_1
        31.0%
        43%
        17.6
        DRR127596_qc_2
        30.7%
        43%
        17.6
        DRR127597_qc_1
        32.4%
        46%
        16.2
        DRR127597_qc_2
        32.2%
        46%
        16.2
        DRR127613_qc_1
        32.1%
        48%
        19.0
        DRR127613_qc_2
        31.9%
        48%
        19.0
        DRR127616_qc_1
        29.2%
        46%
        21.5
        DRR127616_qc_2
        29.3%
        46%
        21.5
        DRR127619_qc_1
        43.3%
        42%
        16.5
        DRR127619_qc_2
        43.0%
        42%
        16.5
        DRR127628_qc_1
        31.2%
        45%
        19.9
        DRR127628_qc_2
        31.2%
        45%
        19.9
        DRR127634_qc_1
        46.7%
        45%
        32.7
        DRR127634_qc_2
        46.2%
        44%
        32.7
        DRR127649_qc_1
        32.3%
        47%
        19.1
        DRR127649_qc_2
        32.0%
        47%
        19.1
        DRR127672_qc_1
        37.3%
        44%
        19.8
        DRR127672_qc_2
        36.8%
        44%
        19.8
        DRR127683_qc_1
        45.2%
        46%
        20.0
        DRR127683_qc_2
        45.0%
        46%
        20.0
        DRR127692_qc_1
        35.9%
        46%
        17.3
        DRR127692_qc_2
        35.8%
        46%
        17.3
        DRR127704_qc_1
        33.6%
        44%
        19.4
        DRR127704_qc_2
        32.9%
        44%
        19.4
        DRR127707_qc_1
        42.4%
        45%
        28.2
        DRR127707_qc_2
        41.9%
        45%
        28.2
        DRR127713_qc_1
        46.7%
        43%
        22.5
        DRR127713_qc_2
        46.0%
        43%
        22.5
        DRR127721_qc_1
        44.8%
        42%
        20.6
        DRR127721_qc_2
        44.8%
        42%
        20.6
        DRR127724_qc_1
        43.2%
        43%
        27.8
        DRR127724_qc_2
        42.7%
        43%
        27.8
        DRR127728_qc_1
        54.7%
        43%
        25.7
        DRR127728_qc_2
        54.1%
        43%
        25.7
        DRR127731_qc_1
        42.0%
        46%
        31.6
        DRR127731_qc_2
        41.8%
        46%
        31.6
        DRR127736_qc_1
        37.5%
        43%
        20.2
        DRR127736_qc_2
        37.1%
        43%
        20.2
        DRR127737_qc_1
        47.1%
        46%
        31.2
        DRR127737_qc_2
        46.9%
        46%
        31.2
        DRR127748_qc_1
        33.5%
        46%
        17.1
        DRR127748_qc_2
        33.5%
        46%
        17.1
        DRR127751_qc_1
        40.0%
        49%
        26.4
        DRR127751_qc_2
        39.8%
        49%
        26.4
        DRR127752_qc_1
        49.3%
        39%
        23.4
        DRR127752_qc_2
        48.7%
        39%
        23.4
        DRR127755_qc_1
        33.6%
        44%
        21.2
        DRR127755_qc_2
        33.6%
        44%
        21.2
        DRR127756_qc_1
        41.2%
        43%
        24.8
        DRR127756_qc_2
        41.0%
        43%
        24.8
        DRR127762_qc_1
        42.9%
        44%
        25.4
        DRR127762_qc_2
        42.7%
        44%
        25.4
        DRR127763_qc_1
        38.0%
        46%
        23.3
        DRR127763_qc_2
        37.9%
        46%
        23.3
        DRR127776_qc_1
        44.1%
        48%
        26.3
        DRR127776_qc_2
        44.1%
        48%
        26.3
        DRR127777_qc_1
        27.4%
        45%
        25.6
        DRR127777_qc_2
        27.2%
        45%
        25.6
        DRR162775_qc_1
        44.3%
        44%
        19.7
        DRR162775_qc_2
        44.5%
        44%
        19.7
        DRR162776_qc_1
        53.8%
        43%
        14.9
        DRR162776_qc_2
        53.2%
        43%
        14.9
        DRR171467_qc_1
        52.8%
        41%
        34.1
        DRR171467_qc_2
        52.4%
        41%
        34.1
        DRR171469_qc_1
        31.1%
        46%
        23.2
        DRR171469_qc_2
        30.9%
        46%
        23.2
        DRR171474_qc_1
        42.5%
        42%
        16.7
        DRR171474_qc_2
        42.2%
        42%
        16.7
        DRR171477_qc_1
        34.1%
        43%
        19.6
        DRR171477_qc_2
        33.6%
        43%
        19.6
        DRR171479_qc_1
        37.1%
        48%
        14.8
        DRR171479_qc_2
        36.8%
        47%
        14.8
        DRR171487_qc_1
        28.2%
        46%
        16.4
        DRR171487_qc_2
        28.0%
        46%
        16.4
        DRR171488_qc_1
        60.3%
        53%
        20.2
        DRR171488_qc_2
        60.1%
        53%
        20.2
        DRR171497_qc_1
        31.4%
        45%
        25.1
        DRR171497_qc_2
        30.2%
        45%
        25.1
        DRR171499_qc_1
        46.9%
        44%
        27.0
        DRR171499_qc_2
        45.1%
        44%
        27.0
        DRR171500_qc_1
        27.5%
        47%
        27.3
        DRR171500_qc_2
        26.0%
        47%
        27.3
        DRR171503_qc_1
        40.0%
        44%
        27.5
        DRR171503_qc_2
        39.6%
        44%
        27.5
        DRR171506_qc_1
        34.0%
        43%
        21.7
        DRR171506_qc_2
        33.0%
        43%
        21.7
        DRR171509_qc_1
        31.0%
        50%
        22.7
        DRR171509_qc_2
        30.9%
        50%
        22.7
        DRR171513_qc_1
        24.3%
        45%
        14.7
        DRR171513_qc_2
        23.6%
        45%
        14.7
        DRR171514_qc_1
        26.9%
        46%
        16.1
        DRR171514_qc_2
        26.9%
        46%
        16.1
        DRR171515_qc_1
        28.5%
        46%
        19.9
        DRR171515_qc_2
        28.4%
        46%
        19.9
        DRR171517_qc_1
        33.8%
        47%
        11.5
        DRR171517_qc_2
        33.3%
        47%
        11.5
        DRR171518_qc_1
        21.8%
        47%
        8.8
        DRR171518_qc_2
        21.8%
        47%
        8.8
        DRR171523_qc_1
        21.2%
        47%
        13.5
        DRR171523_qc_2
        21.2%
        47%
        13.5
        DRR171525_qc_1
        29.2%
        46%
        14.1
        DRR171525_qc_2
        29.1%
        46%
        14.1
        DRR171527_qc_1
        27.6%
        48%
        18.7
        DRR171527_qc_2
        27.3%
        48%
        18.7
        DRR171530_qc_1
        33.7%
        46%
        12.4
        DRR171530_qc_2
        33.4%
        46%
        12.4
        DRR171538_qc_1
        41.8%
        48%
        23.8
        DRR171538_qc_2
        41.4%
        48%
        23.8
        DRR171539_qc_1
        18.7%
        50%
        14.2
        DRR171539_qc_2
        18.4%
        50%
        14.2
        DRR171543_qc_1
        32.2%
        46%
        11.6
        DRR171543_qc_2
        31.7%
        47%
        11.6
        DRR171545_qc_1
        14.8%
        50%
        11.4
        DRR171545_qc_2
        14.6%
        50%
        11.4
        DRR171546_qc_1
        51.6%
        46%
        26.7
        DRR171546_qc_2
        51.0%
        46%
        26.7
        DRR171552_qc_1
        42.5%
        45%
        19.8
        DRR171552_qc_2
        41.7%
        45%
        19.8
        DRR171555_qc_1
        25.6%
        46%
        18.4
        DRR171555_qc_2
        25.3%
        46%
        18.4
        DRR171560_qc_1
        23.5%
        47%
        8.0
        DRR171560_qc_2
        23.3%
        47%
        8.0
        DRR171563_qc_1
        37.2%
        47%
        17.1
        DRR171563_qc_2
        36.4%
        47%
        17.1
        DRR171567_qc_1
        29.4%
        46%
        20.3
        DRR171567_qc_2
        28.4%
        46%
        20.3
        DRR171568_qc_1
        25.6%
        46%
        12.8
        DRR171568_qc_2
        24.8%
        46%
        12.8
        DRR171569_qc_1
        23.6%
        47%
        16.3
        DRR171569_qc_2
        23.0%
        47%
        16.3
        DRR171571_qc_1
        30.7%
        48%
        16.4
        DRR171571_qc_2
        30.1%
        48%
        16.4
        DRR171572_qc_1
        24.9%
        46%
        22.2
        DRR171572_qc_2
        24.1%
        46%
        22.2
        DRR171576_qc_1
        14.2%
        42%
        0.4
        DRR171576_qc_2
        13.7%
        42%
        0.4
        DRR171578_qc_1
        34.4%
        44%
        20.9
        DRR171578_qc_2
        34.0%
        44%
        20.9
        DRR171580_qc_1
        33.5%
        49%
        23.2
        DRR171580_qc_2
        33.0%
        49%
        23.2
        DRR171581_qc_1
        40.1%
        47%
        29.9
        DRR171581_qc_2
        39.7%
        47%
        29.9
        DRR171585_qc_1
        24.3%
        49%
        19.3
        DRR171585_qc_2
        24.1%
        49%
        19.3
        DRR171586_qc_1
        20.2%
        49%
        17.3
        DRR171586_qc_2
        19.9%
        49%
        17.3
        DRR171587_qc_1
        33.9%
        51%
        18.4
        DRR171587_qc_2
        33.5%
        51%
        18.4
        DRR171588_qc_1
        36.8%
        48%
        26.8
        DRR171588_qc_2
        36.0%
        47%
        26.8
        DRR171589_qc_1
        34.3%
        43%
        9.4
        DRR171589_qc_2
        33.6%
        43%
        9.4
        DRR171591_qc_1
        34.3%
        46%
        21.2
        DRR171591_qc_2
        33.5%
        46%
        21.2
        DRR171592_qc_1
        38.2%
        45%
        19.8
        DRR171592_qc_2
        37.1%
        44%
        19.8
        DRR171594_qc_1
        42.9%
        45%
        25.2
        DRR171594_qc_2
        41.9%
        45%
        25.2
        DRR171598_qc_1
        30.7%
        48%
        21.4
        DRR171598_qc_2
        30.0%
        48%
        21.4
        DRR171599_qc_1
        37.7%
        46%
        19.7
        DRR171599_qc_2
        36.2%
        46%
        19.7
        DRR171601_qc_1
        38.7%
        45%
        24.2
        DRR171601_qc_2
        37.6%
        45%
        24.2
        DRR171604_qc_1
        24.4%
        48%
        21.0
        DRR171604_qc_2
        24.0%
        48%
        21.0
        DRR171605_qc_1
        23.3%
        47%
        19.4
        DRR171605_qc_2
        22.9%
        47%
        19.4
        DRR171606_qc_1
        36.6%
        45%
        24.1
        DRR171606_qc_2
        36.1%
        45%
        24.1
        DRR171607_qc_1
        38.1%
        44%
        22.7
        DRR171607_qc_2
        37.3%
        44%
        22.7
        DRR171608_qc_1
        39.3%
        45%
        23.1
        DRR171608_qc_2
        37.9%
        45%
        23.1
        DRR171610_qc_1
        30.2%
        48%
        25.8
        DRR171610_qc_2
        29.5%
        48%
        25.8
        DRR171613_qc_1
        35.6%
        45%
        24.9
        DRR171613_qc_2
        33.9%
        45%
        24.9
        DRR171616_qc_1
        46.1%
        45%
        25.9
        DRR171616_qc_2
        45.3%
        45%
        25.9
        DRR171617_qc_1
        62.9%
        46%
        29.5
        DRR171617_qc_2
        61.4%
        46%
        29.5
        DRR171619_qc_1
        29.8%
        45%
        25.9
        DRR171619_qc_2
        29.5%
        45%
        25.9
        DRR171620_qc_1
        34.8%
        44%
        24.6
        DRR171620_qc_2
        33.9%
        44%
        24.6
        DRR171621_qc_1
        27.0%
        44%
        21.9
        DRR171621_qc_2
        25.8%
        44%
        21.9
        DRR171623_qc_1
        48.6%
        47%
        24.3
        DRR171623_qc_2
        47.7%
        47%
        24.3
        DRR171624_qc_1
        45.7%
        44%
        25.1
        DRR171624_qc_2
        45.1%
        44%
        25.1
        DRR171625_qc_1
        28.7%
        48%
        25.4
        DRR171625_qc_2
        28.4%
        48%
        25.4
        DRR171626_qc_1
        41.3%
        45%
        12.7
        DRR171626_qc_2
        40.3%
        45%
        12.7
        DRR171628_qc_1
        38.5%
        45%
        33.6
        DRR171628_qc_2
        37.8%
        45%
        33.6
        DRR171629_qc_1
        50.4%
        44%
        38.7
        DRR171629_qc_2
        49.7%
        44%
        38.7
        DRR171631_qc_1
        46.5%
        46%
        24.6
        DRR171631_qc_2
        46.0%
        46%
        24.6
        DRR171637_qc_1
        45.7%
        43%
        27.8
        DRR171637_qc_2
        45.2%
        43%
        27.8
        DRR171639_qc_1
        30.9%
        47%
        27.9
        DRR171639_qc_2
        29.6%
        47%
        27.9
        DRR171640_qc_1
        36.6%
        47%
        37.0
        DRR171640_qc_2
        35.1%
        47%
        37.0
        DRR171641_qc_1
        42.8%
        44%
        23.5
        DRR171641_qc_2
        41.9%
        44%
        23.5
        DRR171642_qc_1
        38.2%
        46%
        26.2
        DRR171642_qc_2
        37.1%
        46%
        26.2
        DRR171643_qc_1
        34.0%
        44%
        22.0
        DRR171643_qc_2
        33.8%
        44%
        22.0
        DRR171644_qc_1
        45.7%
        46%
        22.9
        DRR171644_qc_2
        44.7%
        46%
        22.9
        DRR171645_qc_1
        35.3%
        46%
        29.3
        DRR171645_qc_2
        34.6%
        46%
        29.3
        DRR171646_qc_1
        35.6%
        45%
        22.6
        DRR171646_qc_2
        34.5%
        45%
        22.6
        DRR171647_qc_1
        32.5%
        43%
        10.4
        DRR171647_qc_2
        31.7%
        43%
        10.4
        DRR171648_qc_1
        27.1%
        45%
        22.8
        DRR171648_qc_2
        26.5%
        45%
        22.8
        DRR171650_qc_1
        22.0%
        46%
        16.7
        DRR171650_qc_2
        21.7%
        46%
        16.7
        DRR171651_qc_1
        25.8%
        49%
        22.9
        DRR171651_qc_2
        25.5%
        49%
        22.9
        DRR171652_qc_1
        37.8%
        46%
        22.4
        DRR171652_qc_2
        36.7%
        46%
        22.4
        DRR171653_qc_1
        95.2%
        45%
        28.8
        DRR171653_qc_2
        93.3%
        45%
        28.8
        DRR171654_qc_1
        32.6%
        43%
        18.1
        DRR171654_qc_2
        32.0%
        43%
        18.1
        DRR171655_qc_1
        33.3%
        44%
        22.9
        DRR171655_qc_2
        32.5%
        44%
        22.9
        DRR171656_qc_1
        52.3%
        49%
        19.0
        DRR171656_qc_2
        50.4%
        49%
        19.0
        DRR171657_qc_1
        32.0%
        47%
        21.9
        DRR171657_qc_2
        31.1%
        47%
        21.9
        DRR171659_qc_1
        33.9%
        47%
        25.6
        DRR171659_qc_2
        32.8%
        47%
        25.6
        DRR171662_qc_1
        59.0%
        42%
        20.1
        DRR171662_qc_2
        55.7%
        42%
        20.1
        DRR171663_qc_1
        86.9%
        44%
        23.5
        DRR171663_qc_2
        83.3%
        44%
        23.5
        DRR171673_qc_1
        30.1%
        46%
        25.5
        DRR171673_qc_2
        29.1%
        46%
        25.5
        DRR171676_qc_1
        30.0%
        47%
        23.8
        DRR171676_qc_2
        29.0%
        47%
        23.8
        DRR171686_qc_1
        28.5%
        45%
        24.7
        DRR171686_qc_2
        27.9%
        45%
        24.7
        DRR171689_qc_1
        22.2%
        46%
        15.2
        DRR171689_qc_2
        22.0%
        46%
        15.2
        DRR171691_qc_1
        31.7%
        45%
        25.4
        DRR171691_qc_2
        30.8%
        45%
        25.4
        DRR171694_qc_1
        33.7%
        46%
        25.6
        DRR171694_qc_2
        32.3%
        46%
        25.6
        DRR171698_qc_1
        41.1%
        46%
        25.6
        DRR171698_qc_2
        40.5%
        46%
        25.6
        DRR171700_qc_1
        39.6%
        42%
        18.9
        DRR171700_qc_2
        38.9%
        42%
        18.9
        DRR171705_qc_1
        24.2%
        47%
        15.8
        DRR171705_qc_2
        23.6%
        47%
        15.8
        DRR171710_qc_1
        29.7%
        48%
        23.6
        DRR171710_qc_2
        28.8%
        48%
        23.6
        DRR171711_qc_1
        28.3%
        46%
        20.7
        DRR171711_qc_2
        27.8%
        46%
        20.7
        DRR171712_qc_1
        25.7%
        46%
        22.8
        DRR171712_qc_2
        24.9%
        45%
        22.8
        DRR171713_qc_1
        26.4%
        43%
        22.4
        DRR171713_qc_2
        25.7%
        43%
        22.4
        DRR171714_qc_1
        43.2%
        43%
        24.5
        DRR171714_qc_2
        42.1%
        43%
        24.5
        DRR171715_qc_1
        29.0%
        45%
        25.2
        DRR171715_qc_2
        28.2%
        45%
        25.2
        DRR171716_qc_1
        24.2%
        47%
        22.5
        DRR171716_qc_2
        23.2%
        47%
        22.5
        DRR171717_qc_1
        31.1%
        46%
        17.6
        DRR171717_qc_2
        30.9%
        46%
        17.6
        DRR171718_qc_1
        95.8%
        52%
        7.8
        DRR171718_qc_2
        94.5%
        52%
        7.8
        DRR171719_qc_1
        26.6%
        46%
        26.9
        DRR171719_qc_2
        24.9%
        46%
        26.9
        DRR171720_qc_1
        34.0%
        45%
        21.7
        DRR171720_qc_2
        31.8%
        45%
        21.7
        DRR171721_qc_1
        17.1%
        46%
        2.2
        DRR171721_qc_2
        16.5%
        46%
        2.2
        DRR171722_qc_1
        37.4%
        46%
        19.5
        DRR171722_qc_2
        36.3%
        46%
        19.5
        DRR171723_qc_1
        43.2%
        45%
        17.2
        DRR171723_qc_2
        41.8%
        45%
        17.2
        DRR171724_qc_1
        56.5%
        45%
        41.0
        DRR171724_qc_2
        56.3%
        45%
        41.0
        DRR171725_qc_1
        36.7%
        45%
        22.9
        DRR171725_qc_2
        36.2%
        45%
        22.9
        DRR171726_qc_1
        36.3%
        45%
        17.5
        DRR171726_qc_2
        35.4%
        45%
        17.5
        DRR171727_qc_1
        45.1%
        48%
        30.8
        DRR171727_qc_2
        44.8%
        48%
        30.8
        DRR171733_qc_1
        47.2%
        45%
        34.0
        DRR171733_qc_2
        46.9%
        45%
        34.0
        DRR171737_qc_1
        33.4%
        46%
        21.3
        DRR171737_qc_2
        33.0%
        46%
        21.3
        DRR171741_qc_1
        43.1%
        48%
        36.6
        DRR171741_qc_2
        42.8%
        48%
        36.6
        DRR171745_qc_1
        47.3%
        43%
        14.0
        DRR171745_qc_2
        46.5%
        43%
        14.0
        DRR171747_qc_1
        35.3%
        45%
        27.2
        DRR171747_qc_2
        35.1%
        45%
        27.2
        DRR171755_qc_1
        42.0%
        45%
        31.1
        DRR171755_qc_2
        41.8%
        45%
        31.1
        DRR171762_qc_1
        39.5%
        47%
        26.8
        DRR171762_qc_2
        39.1%
        47%
        26.8
        DRR171763_qc_1
        23.6%
        46%
        17.0
        DRR171763_qc_2
        23.7%
        46%
        17.0
        DRR171765_qc_1
        33.9%
        48%
        18.9
        DRR171765_qc_2
        33.7%
        48%
        18.9
        DRR171770_qc_1
        39.3%
        47%
        25.9
        DRR171770_qc_2
        39.1%
        47%
        25.9
        DRR171771_qc_1
        41.7%
        47%
        13.6
        DRR171771_qc_2
        40.9%
        47%
        13.6
        DRR171772_qc_1
        51.4%
        46%
        15.2
        DRR171772_qc_2
        50.7%
        46%
        15.2
        DRR171773_qc_1
        33.1%
        45%
        21.2
        DRR171773_qc_2
        33.2%
        45%
        21.2
        DRR171777_qc_1
        41.7%
        45%
        34.6
        DRR171777_qc_2
        41.6%
        45%
        34.6
        DRR171779_qc_1
        37.1%
        46%
        28.5
        DRR171779_qc_2
        36.8%
        46%
        28.5
        DRR171782_qc_1
        33.0%
        45%
        23.8
        DRR171782_qc_2
        32.7%
        45%
        23.8
        DRR171783_qc_1
        50.3%
        44%
        38.8
        DRR171783_qc_2
        49.7%
        44%
        38.8
        DRR171786_qc_1
        51.5%
        45%
        36.1
        DRR171786_qc_2
        50.7%
        45%
        36.1
        DRR171791_qc_1
        26.2%
        45%
        22.4
        DRR171791_qc_2
        25.7%
        45%
        22.4
        DRR171793_qc_1
        34.5%
        46%
        20.8
        DRR171793_qc_2
        34.4%
        46%
        20.8
        DRR171796_qc_1
        25.5%
        46%
        20.5
        DRR171796_qc_2
        25.1%
        46%
        20.5
        DRR171798_qc_1
        55.8%
        45%
        17.3
        DRR171798_qc_2
        55.5%
        45%
        17.3
        DRR171801_qc_1
        39.4%
        47%
        17.7
        DRR171801_qc_2
        39.3%
        47%
        17.7
        DRR171802_qc_1
        29.9%
        44%
        15.4
        DRR171802_qc_2
        29.9%
        44%
        15.4
        DRR171807_qc_1
        49.4%
        42%
        21.3
        DRR171807_qc_2
        48.6%
        42%
        21.3
        DRR171810_qc_1
        41.0%
        46%
        20.4
        DRR171810_qc_2
        40.3%
        46%
        20.4
        DRR171812_qc_1
        53.3%
        46%
        20.0
        DRR171812_qc_2
        52.7%
        46%
        20.0
        DRR171813_qc_1
        25.4%
        44%
        18.6
        DRR171813_qc_2
        25.1%
        44%
        18.6
        DRR171816_qc_1
        40.4%
        45%
        17.4
        DRR171816_qc_2
        40.2%
        45%
        17.4
        DRR171817_qc_1
        32.6%
        47%
        16.3
        DRR171817_qc_2
        32.5%
        47%
        16.3
        DRR171821_qc_1
        30.3%
        44%
        18.5
        DRR171821_qc_2
        30.1%
        44%
        18.5
        DRR171825_qc_1
        28.3%
        45%
        17.4
        DRR171825_qc_2
        28.5%
        45%
        17.4
        DRR171829_qc_1
        38.3%
        44%
        21.7
        DRR171829_qc_2
        38.4%
        44%
        21.7
        DRR171833_qc_1
        38.9%
        41%
        19.7
        DRR171833_qc_2
        38.9%
        41%
        19.7
        DRR171834_qc_1
        53.8%
        45%
        20.4
        DRR171834_qc_2
        53.6%
        45%
        20.4
        DRR171838_qc_1
        31.3%
        44%
        16.2
        DRR171838_qc_2
        31.3%
        44%
        16.2
        DRR171840_qc_1
        31.1%
        45%
        18.1
        DRR171840_qc_2
        31.1%
        45%
        18.1
        DRR171842_qc_1
        37.1%
        46%
        19.7
        DRR171842_qc_2
        36.8%
        46%
        19.7
        DRR171843_qc_1
        35.6%
        46%
        20.3
        DRR171843_qc_2
        35.5%
        46%
        20.3
        DRR171845_qc_1
        44.7%
        46%
        21.4
        DRR171845_qc_2
        44.5%
        46%
        21.4
        DRR171849_qc_1
        40.4%
        44%
        31.8
        DRR171849_qc_2
        39.3%
        44%
        31.8
        DRR171850_qc_1
        32.9%
        45%
        18.4
        DRR171850_qc_2
        32.4%
        45%
        18.4
        DRR171852_qc_1
        49.7%
        44%
        27.1
        DRR171852_qc_2
        49.3%
        44%
        27.1
        DRR171855_qc_1
        46.9%
        46%
        19.5
        DRR171855_qc_2
        46.4%
        46%
        19.5
        DRR171856_qc_1
        41.7%
        44%
        19.7
        DRR171856_qc_2
        41.3%
        44%
        19.7
        DRR171862_qc_1
        44.6%
        45%
        22.6
        DRR171862_qc_2
        44.1%
        45%
        22.6
        DRR171863_qc_1
        31.7%
        44%
        15.4
        DRR171863_qc_2
        18.7%
        44%
        15.4
        DRR171864_qc_1
        47.0%
        46%
        20.5
        DRR171864_qc_2
        30.5%
        46%
        20.5
        DRR171865_qc_1
        43.3%
        46%
        21.8
        DRR171865_qc_2
        40.3%
        46%
        21.8
        DRR171870_qc_1
        28.6%
        45%
        15.8
        DRR171870_qc_2
        16.7%
        44%
        15.8
        DRR171872_qc_1
        36.1%
        47%
        17.6
        DRR171872_qc_2
        35.8%
        47%
        17.6
        DRR171876_qc_1
        59.5%
        45%
        23.1
        DRR171876_qc_2
        59.2%
        45%
        23.1
        DRR171886_qc_1
        37.0%
        46%
        22.1
        DRR171886_qc_2
        36.9%
        46%
        22.1
        DRR171890_qc_1
        29.3%
        45%
        19.4
        DRR171890_qc_2
        29.2%
        45%
        19.4
        DRR171897_qc_1
        53.7%
        45%
        38.9
        DRR171897_qc_2
        53.7%
        45%
        38.9
        DRR171899_qc_1
        44.5%
        51%
        16.8
        DRR171899_qc_2
        44.1%
        51%
        16.8
        DRR171902_qc_1
        92.5%
        46%
        8.5
        DRR171902_qc_2
        92.1%
        46%
        8.5
        DRR171915_qc_1
        25.4%
        47%
        24.4
        DRR171915_qc_2
        25.0%
        47%
        24.4
        DRR171917_qc_1
        43.6%
        44%
        28.5
        DRR171917_qc_2
        43.3%
        44%
        28.5
        DRR171919_qc_1
        44.5%
        44%
        20.2
        DRR171919_qc_2
        44.1%
        44%
        20.2
        DRR171921_qc_1
        34.1%
        45%
        32.8
        DRR171921_qc_2
        33.8%
        45%
        32.8
        DRR171922_qc_1
        43.2%
        45%
        25.9
        DRR171922_qc_2
        42.8%
        45%
        25.9
        DRR171923_qc_1
        27.7%
        47%
        24.8
        DRR171923_qc_2
        27.4%
        47%
        24.8
        DRR171925_qc_1
        34.6%
        45%
        28.2
        DRR171925_qc_2
        34.3%
        45%
        28.2
        DRR171928_qc_1
        44.4%
        43%
        21.4
        DRR171928_qc_2
        44.2%
        43%
        21.4
        DRR171930_qc_1
        27.7%
        48%
        26.7
        DRR171930_qc_2
        27.6%
        48%
        26.7
        DRR171931_qc_1
        43.6%
        43%
        25.9
        DRR171931_qc_2
        43.7%
        43%
        25.9
        DRR171933_qc_1
        30.9%
        46%
        32.4
        DRR171933_qc_2
        30.6%
        45%
        32.4
        DRR171934_qc_1
        48.1%
        45%
        22.8
        DRR171934_qc_2
        47.7%
        45%
        22.8
        DRR171935_qc_1
        35.3%
        45%
        25.5
        DRR171935_qc_2
        35.0%
        45%
        25.5
        DRR171936_qc_1
        31.0%
        44%
        16.9
        DRR171936_qc_2
        30.7%
        44%
        16.9
        DRR171938_qc_1
        35.6%
        45%
        24.9
        DRR171938_qc_2
        34.8%
        45%
        24.9
        DRR171939_qc_1
        40.8%
        43%
        25.2
        DRR171939_qc_2
        39.9%
        43%
        25.2
        DRR171941_qc_1
        38.7%
        49%
        19.4
        DRR171941_qc_2
        38.5%
        49%
        19.4
        DRR171942_qc_1
        39.5%
        46%
        16.2
        DRR171942_qc_2
        39.6%
        46%
        16.2
        DRR171943_qc_1
        51.2%
        46%
        26.1
        DRR171943_qc_2
        50.8%
        46%
        26.1
        DRR171948_qc_1
        35.7%
        46%
        22.0
        DRR171948_qc_2
        35.6%
        45%
        22.0
        DRR171950_qc_1
        37.8%
        44%
        25.8
        DRR171950_qc_2
        37.1%
        43%
        25.8
        DRR171951_qc_1
        35.2%
        45%
        26.1
        DRR171951_qc_2
        34.4%
        45%
        26.1
        DRR171952_qc_1
        11.2%
        45%
        7.0
        DRR171952_qc_2
        11.2%
        45%
        7.0
        DRR171953_qc_1
        32.1%
        43%
        31.6
        DRR171953_qc_2
        32.2%
        43%
        31.6
        DRR171954_qc_1
        30.9%
        45%
        29.1
        DRR171954_qc_2
        30.9%
        45%
        29.1
        DRR171957_qc_1
        28.8%
        44%
        21.8
        DRR171957_qc_2
        28.6%
        44%
        21.8
        DRR171959_qc_1
        28.8%
        45%
        25.1
        DRR171959_qc_2
        28.3%
        45%
        25.1
        DRR171964_qc_1
        32.9%
        44%
        27.7
        DRR171964_qc_2
        32.0%
        44%
        27.7
        DRR171965_qc_1
        47.2%
        38%
        22.5
        DRR171965_qc_2
        46.1%
        38%
        22.5
        DRR173016_qc_1
        30.1%
        45%
        16.0
        DRR173016_qc_2
        30.0%
        45%
        16.0
        DRR173017_qc_1
        54.8%
        45%
        14.9
        DRR173017_qc_2
        54.4%
        45%
        14.9

        FastQC

        FastQC is a quality control tool for high throughput sequence data, written by Simon Andrews at the Babraham Institute in Cambridge.

        Sequence Counts

        Sequence counts for each sample. Duplicate read counts are an estimate only.

        This plot show the total number of reads, broken down into unique and duplicate if possible (only more recent versions of FastQC give duplicate info).

        You can read more about duplicate calculation in the FastQC documentation. A small part has been copied here for convenience:

        Only sequences which first appear in the first 100,000 sequences in each file are analysed. This should be enough to get a good impression for the duplication levels in the whole file. Each sequence is tracked to the end of the file to give a representative count of the overall duplication level.

        The duplication detection requires an exact sequence match over the whole length of the sequence. Any reads over 75bp in length are truncated to 50bp for this analysis.

        loading..

        Sequence Quality Histograms

        The mean quality value across each base position in the read.

        To enable multiple samples to be plotted on the same graph, only the mean quality scores are plotted (unlike the box plots seen in FastQC reports).

        Taken from the FastQC help:

        The y-axis on the graph shows the quality scores. The higher the score, the better the base call. The background of the graph divides the y axis into very good quality calls (green), calls of reasonable quality (orange), and calls of poor quality (red). The quality of calls on most platforms will degrade as the run progresses, so it is common to see base calls falling into the orange area towards the end of a read.

        loading..

        Per Sequence Quality Scores

        The number of reads with average quality scores. Shows if a subset of reads has poor quality.

        From the FastQC help:

        The per sequence quality score report allows you to see if a subset of your sequences have universally low quality values. It is often the case that a subset of sequences will have universally poor quality, however these should represent only a small percentage of the total sequences.

        loading..

        Per Base Sequence Content

        The proportion of each base position for which each of the four normal DNA bases has been called.

        To enable multiple samples to be shown in a single plot, the base composition data is shown as a heatmap. The colours represent the balance between the four bases: an even distribution should give an even muddy brown colour. Hover over the plot to see the percentage of the four bases under the cursor.

        To see the data as a line plot, as in the original FastQC graph, click on a sample track.

        From the FastQC help:

        Per Base Sequence Content plots out the proportion of each base position in a file for which each of the four normal DNA bases has been called.

        In a random library you would expect that there would be little to no difference between the different bases of a sequence run, so the lines in this plot should run parallel with each other. The relative amount of each base should reflect the overall amount of these bases in your genome, but in any case they should not be hugely imbalanced from each other.

        It's worth noting that some types of library will always produce biased sequence composition, normally at the start of the read. Libraries produced by priming using random hexamers (including nearly all RNA-Seq libraries) and those which were fragmented using transposases inherit an intrinsic bias in the positions at which reads start. This bias does not concern an absolute sequence, but instead provides enrichement of a number of different K-mers at the 5' end of the reads. Whilst this is a true technical bias, it isn't something which can be corrected by trimming and in most cases doesn't seem to adversely affect the downstream analysis.

        Click a sample row to see a line plot for that dataset.
        Rollover for sample name
        Position: -
        %T: -
        %C: -
        %A: -
        %G: -

        Per Sequence GC Content

        The average GC content of reads. Normal random library typically have a roughly normal distribution of GC content.

        From the FastQC help:

        This module measures the GC content across the whole length of each sequence in a file and compares it to a modelled normal distribution of GC content.

        In a normal random library you would expect to see a roughly normal distribution of GC content where the central peak corresponds to the overall GC content of the underlying genome. Since we don't know the the GC content of the genome the modal GC content is calculated from the observed data and used to build a reference distribution.

        An unusually shaped distribution could indicate a contaminated library or some other kinds of biased subset. A normal distribution which is shifted indicates some systematic bias which is independent of base position. If there is a systematic bias which creates a shifted normal distribution then this won't be flagged as an error by the module since it doesn't know what your genome's GC content should be.

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        Per Base N Content

        The percentage of base calls at each position for which an N was called.

        From the FastQC help:

        If a sequencer is unable to make a base call with sufficient confidence then it will normally substitute an N rather than a conventional base call. This graph shows the percentage of base calls at each position for which an N was called.

        It's not unusual to see a very low proportion of Ns appearing in a sequence, especially nearer the end of a sequence. However, if this proportion rises above a few percent it suggests that the analysis pipeline was unable to interpret the data well enough to make valid base calls.

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        Sequence Length Distribution

        The distribution of fragment sizes (read lengths) found. See the FastQC help

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        Sequence Duplication Levels

        The relative level of duplication found for every sequence.

        From the FastQC Help:

        In a diverse library most sequences will occur only once in the final set. A low level of duplication may indicate a very high level of coverage of the target sequence, but a high level of duplication is more likely to indicate some kind of enrichment bias (eg PCR over amplification). This graph shows the degree of duplication for every sequence in a library: the relative number of sequences with different degrees of duplication.

        Only sequences which first appear in the first 100,000 sequences in each file are analysed. This should be enough to get a good impression for the duplication levels in the whole file. Each sequence is tracked to the end of the file to give a representative count of the overall duplication level.

        The duplication detection requires an exact sequence match over the whole length of the sequence. Any reads over 75bp in length are truncated to 50bp for this analysis.

        In a properly diverse library most sequences should fall into the far left of the plot in both the red and blue lines. A general level of enrichment, indicating broad oversequencing in the library will tend to flatten the lines, lowering the low end and generally raising other categories. More specific enrichments of subsets, or the presence of low complexity contaminants will tend to produce spikes towards the right of the plot.

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        Overrepresented sequences

        The total amount of overrepresented sequences found in each library.

        FastQC calculates and lists overrepresented sequences in FastQ files. It would not be possible to show this for all samples in a MultiQC report, so instead this plot shows the number of sequences categorized as over represented.

        Sometimes, a single sequence may account for a large number of reads in a dataset. To show this, the bars are split into two: the first shows the overrepresented reads that come from the single most common sequence. The second shows the total count from all remaining overrepresented sequences.

        From the FastQC Help:

        A normal high-throughput library will contain a diverse set of sequences, with no individual sequence making up a tiny fraction of the whole. Finding that a single sequence is very overrepresented in the set either means that it is highly biologically significant, or indicates that the library is contaminated, or not as diverse as you expected.

        FastQC lists all of the sequences which make up more than 0.1% of the total. To conserve memory only sequences which appear in the first 100,000 sequences are tracked to the end of the file. It is therefore possible that a sequence which is overrepresented but doesn't appear at the start of the file for some reason could be missed by this module.

        494 samples had less than 1% of reads made up of overrepresented sequences

        Adapter Content

        The cumulative percentage count of the proportion of your library which has seen each of the adapter sequences at each position.

        Note that only samples with ≥ 0.1% adapter contamination are shown.

        There may be several lines per sample, as one is shown for each adapter detected in the file.

        From the FastQC Help:

        The plot shows a cumulative percentage count of the proportion of your library which has seen each of the adapter sequences at each position. Once a sequence has been seen in a read it is counted as being present right through to the end of the read so the percentages you see will only increase as the read length goes on.

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        Status Checks

        Status for each FastQC section showing whether results seem entirely normal (green), slightly abnormal (orange) or very unusual (red).

        FastQC assigns a status for each section of the report. These give a quick evaluation of whether the results of the analysis seem entirely normal (green), slightly abnormal (orange) or very unusual (red).

        It is important to stress that although the analysis results appear to give a pass/fail result, these evaluations must be taken in the context of what you expect from your library. A 'normal' sample as far as FastQC is concerned is random and diverse. Some experiments may be expected to produce libraries which are biased in particular ways. You should treat the summary evaluations therefore as pointers to where you should concentrate your attention and understand why your library may not look random and diverse.

        Specific guidance on how to interpret the output of each module can be found in the relevant report section, or in the FastQC help.

        In this heatmap, we summarise all of these into a single heatmap for a quick overview. Note that not all FastQC sections have plots in MultiQC reports, but all status checks are shown in this heatmap.

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        MultiQC v1.14 - Written by Phil Ewels, available on GitHub.

        This report uses HighCharts, jQuery, jQuery UI, Bootstrap, FileSaver.js and clipboard.js.